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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgacacttaaccttctataagagtctgtatctcttccatagcataatatcaagggcaggaatggatttaactatttatattctgtcagGCACTTCTCTCCGGATGCTCTGCTGGTGGTTTAGCAGCAATCTTGCGCTGCGATGAGTTTAGGAACTTATTCCCTGGATCAACCAAAGTCAAGTGCTTGA

Basic information

species Arabidopsis thaliana
transcript AT3G05910.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G05910.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os07g44070.2 (Oryza sativa), 3'ss of exon 5
gttttgacacttaaccttctataagagtctgtatctcttccatagcataatatcaagggcaggaatggatttaactatttata------ttctgtcagGCACTTCTCTCCGGATGCTCTGCTGGTGGTTTAGCAGCAATCTTGCGCTGCGATGAGTTTAGGAACTTATTCCCTGGATCAACCAAAGTCAAGTGCTTGA
        ||| | ||||| | |        | | |  |  |     |   ||   ||  |  | |    ||  ||    | |      ||||  ||||||||||| || |||||||||||||||||| |  || | ||  | | ||| || |||||  |    || ||    ||    || || || |||||| |  
------gtactgatccttccacagctaatcatgttttctttagccttttggattttggaaataatttatgtttccttgccacaactcaattctaccagGCACTTCTTTCTGGATGCTCTGCTGGTGGTGTTTCAACCATACTTCACTGTGACGAGTTCCGTGGATTGTTTAGCGGCAGTACAAACGTGAAGTGCCTTG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|116404724|gb|EG447316.1|EG447316
EST:     GAGCCGCAATAGATGATTTGAAGGCGAATGGAATGCGATACGCCAATCAG                         GCACTTCTCTCCGGATGCTCTGCTGGTGGTTTAGCAGCAATCTTGCGCTGC
genomic: GAGCCGCAATAGATGATTTGAAGGCGAATGGAATGCGATACGCCAATCAGgttttgacac ... attctgtcagGCACTTCTCTCCGGATGCTCTGCTGGTGGTTTAGCAGCAATCTTGCGCTGC
EST: gi|125016182|gb|EL088451.1|EL088451
EST:     CGAATGGAATGCGATACGCCAATCAG                         GCACTTCTCTCCGGATGCTCTGCTGGTGGTTTAGCAGCAATCTTGCGCTGC
genomic: CGAATGGAATGCGATACGCCAATCAGgttttgacac ... attctgtcagGCACTTCTCTCCGGATGCTCTGCTGGTGGTTTAGCAGCAATCTTGCGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccatagcataatatcaagggcaggaatggatttaactatttatattctgtcagGCACTTCTCTCCGGATGCTCTGCTGGTGGTTTAGCAGCAATCTTGCGCTGCGATGAGTTTAGGAACTTATTCCCTGGATCAACCAAAGTCAAGTGCTTGA
                               atttaac  putative branch site (score: 3)
                                              ttctgtc  putative PPT
                          aatggatttaactatt  TA-rich tract